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    Cxcl13 C-X-C motif chemokine ligand 13 [ Mus musculus (house mouse) ]

    Gene ID: 55985, updated on 9-Dec-2024

    Summary

    Official Symbol
    Cxcl13provided by MGI
    Official Full Name
    C-X-C motif chemokine ligand 13provided by MGI
    Primary source
    MGI:MGI:1888499
    See related
    Ensembl:ENSMUSG00000023078 AllianceGenome:MGI:1888499
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
    Also known as
    BLC; Angie; BCA-1; BLR1L; ANGIE2; Scyb13; 4631412M08Rik
    Summary
    Enables CXCR5 chemokine receptor binding activity and chemokine activity. Involved in several processes, including B cell chemotaxis across high endothelial venule; activation of GTPase activity; and lymph node development. Located in extracellular space. Is expressed in Peyer's patch; aorta; central nervous system; and retina. Orthologous to human CXCL13 (C-X-C motif chemokine ligand 13). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in spleen adult (RPKM 19.2), mammary gland adult (RPKM 8.1) and 6 other tissues See more
    Orthologs
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    Genomic context

    See Cxcl13 in Genome Data Viewer
    Location:
    5 E3; 5 47.29 cM
    Exon count:
    4
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 5 NC_000071.7 (96104785..96108927)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 5 NC_000071.6 (95956939..95961068)

    Chromosome 5 - NC_000071.7Genomic Context describing neighboring genes Neighboring gene glyceraldehyde-3-phosphate dehydrogenase pseudogene Neighboring gene predicted gene, 25937 Neighboring gene ornithine decarboxylase, structural 1 pseudogene Neighboring gene STARR-seq mESC enhancer starr_13673 Neighboring gene CCR4-NOT transcription complex, subunit 6-like Neighboring gene CapStarr-seq enhancer MGSCv37_chr5:96589986-96590095 Neighboring gene STARR-positive B cell enhancer mm9_chr5:96592485-96592786

    Genomic regions, transcripts, and products

    Expression

    • Project title: Mouse ENCODE transcriptome data
    • Description: RNA profiling data sets generated by the Mouse ENCODE project.
    • BioProject: PRJNA66167
    • Publication: PMID 25409824
    • Analysis date: n/a

    Bibliography

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Variation

    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Chemically induced (ENU) (1) 
    • Endonuclease-mediated (8) 
    • Targeted (2)  1 citation

    Pathways from PubChem

    General gene information

    Markers

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables CCR10 chemokine receptor binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables CCR10 chemokine receptor binding ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    enables CXCR chemokine receptor binding IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables CXCR3 chemokine receptor binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables CXCR3 chemokine receptor binding ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    enables CXCR5 chemokine receptor binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables CXCR5 chemokine receptor binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables chemokine activity IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables chemokine activity IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables chemokine activity ISO
    Inferred from Sequence Orthology
    more info
     
    enables fibroblast growth factor binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables fibroblast growth factor binding ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    enables heparin binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables heparin binding ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    enables receptor ligand activity ISO
    Inferred from Sequence Orthology
    more info
     
    enables receptor ligand activity ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    Process Evidence Code Pubs
    involved_in B cell chemotaxis IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in B cell chemotaxis ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in B cell chemotaxis across high endothelial venule IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in activation of GTPase activity IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in antimicrobial humoral immune response mediated by antimicrobial peptide IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in antimicrobial humoral immune response mediated by antimicrobial peptide ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in cell surface receptor signaling pathway ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in cell-cell signaling ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in cell-cell signaling ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in cellular response to lipopolysaccharide IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in chemokine-mediated signaling pathway NAS
    Non-traceable Author Statement
    more info
    PubMed 
    involved_in defense response to bacterium ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in defense response to bacterium ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in endothelial cell chemotaxis to fibroblast growth factor ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in endothelial cell chemotaxis to fibroblast growth factor ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in immune response IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in inflammatory response IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in inflammatory response IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in killing of cells of another organism ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in lymph node development IDA
    Inferred from Direct Assay
    more info
    PubMed 
    acts_upstream_of_or_within lymph node development IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in lymphocyte chemotaxis across high endothelial venule IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in negative regulation of endothelial cell chemotaxis to fibroblast growth factor ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in neutrophil chemotaxis IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in positive regulation of T cell chemotaxis ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of T cell chemotaxis ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in positive regulation of cell-cell adhesion mediated by integrin IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in positive regulation of cytosolic calcium ion concentration ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of cytosolic calcium ion concentration ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in positive regulation of integrin activation IDA
    Inferred from Direct Assay
    more info
    PubMed 
    Component Evidence Code Pubs
    located_in extracellular region ISO
    Inferred from Sequence Orthology
    more info
     
    located_in extracellular region ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    is_active_in extracellular space IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in extracellular space IDA
    Inferred from Direct Assay
    more info
    PubMed 

    General protein information

    Preferred Names
    C-X-C motif chemokine 13
    Names
    B lymphocyte chemoattractant
    CXC chemokine BLC
    chemokine (C-X-C motif) ligand 13
    small inducible cytokine subfamily B (Cys-X-Cys), member 13
    small-inducible cytokine B13

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    RefSeqs maintained independently of Annotated Genomes

    These reference sequences exist independently of genome builds. Explain

    These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

    mRNA and Protein(s)

    1. NM_018866.3NP_061354.1  C-X-C motif chemokine 13 precursor

      See identical proteins and their annotated locations for NP_061354.1

      Status: VALIDATED

      Source sequence(s)
      AC146611
      Consensus CDS
      CCDS19447.1
      UniProtKB/Swiss-Prot
      O55038
      UniProtKB/TrEMBL
      Q3U1E8
      Related
      ENSMUSP00000023840.6, ENSMUST00000023840.7
      Conserved Domains (1) summary
      cd00273
      Location:2992
      Chemokine_CXC; Chemokine_CXC: 1 of 4 subgroup designations based on the arrangement of the two N-terminal cysteine residues; includes a number of secreted growth factors and interferons involved in mitogenic, chemotactic, and inflammatory activity; many members ...

    RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000071.7 Reference GRCm39 C57BL/6J

      Range
      96104785..96108927
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)